This supplementary information presents :
- first, the code to generate the figures from the paper,
- second, some control experiments that were mentionned in the paper,
- finally, some perspectives for future work inspired by the algorithms presented in the paper.
Figures for "An adaptive algorithm for unsupervised learning"¶
In [1]:
%load_ext autoreload
%autoreload 2
A convenience script model.py allows to run and cache most learning items in this notebooks:
In [2]:
%run model.py
In [3]:
from shl_scripts.shl_experiments import SHL
shl = SHL(**opts)
data = shl.get_data(matname=tag)
In [4]:
shl?
In [5]:
print('# of pixels per patch =', shl.patch_width**2)
In [6]:
print('number of patches, size of patches = ', data.shape)
print('average of patches = ', data.mean(), ' +/- ', data.mean(axis=1).std())
SE = np.sqrt(np.mean(data**2, axis=1))
print('average energy of data = ', SE.mean(), '+/-', SE.std())
In [7]:
#!ls -l {shl.cache_dir}/
#!ls -l {shl.cache_dir}/{tag}*
!ls {shl.cache_dir}/{tag}*lock*
#!rm {shl.cache_dir}/{tag}*lock*
#!rm {shl.cache_dir}/{tag}*
#!ls -l {shl.cache_dir}/{tag}*
In [8]:
fname = 'figure_map'
N_cv = 10
one_cv = 9 # picking one to display intermediate results
learning¶
The actual learning is done in a second object (here dico) from which we can access another set of properties and functions (see the shl_learn.py script):
In [9]:
homeo_methods = ['None', 'OLS', 'HEH']
list_figures = ['show_dico', 'time_plot_error', 'time_plot_logL', 'time_plot_MC', 'show_Pcum']
list_figures = []
dico = {}
for i_cv in range(N_cv):
dico[i_cv] = {}
for homeo_method in homeo_methods:
shl = SHL(homeo_method=homeo_method, seed=seed+i_cv, **opts)
dico[i_cv][homeo_method] = shl.learn_dico(data=data, list_figures=list_figures, matname=tag + '_' + homeo_method + '_seed=' + str(seed+i_cv))
In [10]:
list_figures = ['show_dico']
for i_cv in [one_cv]:
for homeo_method in homeo_methods:
print(hl + hs + homeo_method[:3] + hs + hl)
shl = SHL(homeo_method=homeo_method, seed=seed+i_cv, **opts)
shl.learn_dico(data=data, list_figures=list_figures, matname=tag + '_' + homeo_method + '_seed=' + str(seed+i_cv))
print('size of dictionary = (number of filters, size of imagelets) = ', dico[i_cv][homeo_method].dictionary.shape)
print('average of filters = ', dico[i_cv][homeo_method].dictionary.mean(axis=1).mean(),
'+/-', dico[i_cv][homeo_method].dictionary.mean(axis=1).std())
SE = np.sqrt(np.sum(dico[i_cv][homeo_method].dictionary**2, axis=1))
print('average energy of filters = ', SE.mean(), '+/-', SE.std())
plt.show()
panel A: plotting some dictionaries¶
In [11]:
pname = '/tmp/panel_A' #pname = fname + '_A'
In [12]:
from shl_scripts import show_dico
if DEBUG: show_dico(shl, dico[one_cvi_cv][homeo_method], data=data, dim_graph=(2,5))
In [13]:
dim_graph = (2, 9)
colors = ['black', 'orange', 'blue']
homeo_methods
Out[13]:
In [14]:
%run model.py
In [15]:
subplotpars = dict(left=0.042, right=1., bottom=0., top=1., wspace=0.05, hspace=0.05,)
fig, axs = plt.subplots(3, 1, figsize=(fig_width/2, fig_width/(1+phi)), gridspec_kw=subplotpars)
for ax, color, homeo_method in zip(axs.ravel(), colors, homeo_methods):
ax.axis(c=color, lw=2, axisbg='w')
ax.set_facecolor('w')
fig, ax = show_dico(shl, dico[one_cv][homeo_method], data=data, dim_graph=dim_graph, fig=fig, ax=ax)
# ax.set_ylabel(homeo_method)
ax.text(-11, 11*dim_graph[0], homeo_method, fontsize=12, color=color, rotation=90)#, backgroundcolor='white'
for ext in FORMATS: fig.savefig(pname + ext, dpi=dpi_export, bbox_inches='tight')
In [16]:
### TODO put the p_min an p_max value in the filter map
In [17]:
if DEBUG: Image(pname +'.png')
In [18]:
if DEBUG: help(fig.subplots_adjust)
In [19]:
if DEBUG: help(plt.subplots)
In [20]:
if DEBUG: help(matplotlib.gridspec.GridSpec)
panel B: quantitative comparison¶
In [21]:
pname = '/tmp/panel_B' #fname + '_B'
In [22]:
from shl_scripts import time_plot
variable = 'F'
alpha_0, alpha = .3, .15
subplotpars = dict(left=0.2, right=.95, bottom=0.2, top=.95)#, wspace=0.05, hspace=0.05,)
fig, ax = plt.subplots(1, 1, figsize=(fig_width/2, fig_width/(1+phi)), gridspec_kw=subplotpars)
for i_cv in range(N_cv):
for color, homeo_method in zip(colors, homeo_methods):
ax.axis(c='b', lw=2, axisbg='w')
ax.set_facecolor('w')
if i_cv==0:
fig, ax = time_plot(shl, dico[i_cv][homeo_method], variable=variable, unit='bits', color=color, label=homeo_method, alpha=alpha_0, fig=fig, ax=ax)
else:
fig, ax = time_plot(shl, dico[i_cv][homeo_method], variable=variable, unit='bits', color=color, alpha=alpha, fig=fig, ax=ax)
# ax.set_ylabel(homeo_method)
#ax.text(-8, 7*dim_graph[0], homeo_method, fontsize=12, color='k', rotation=90)#, backgroundcolor='white'
ax.legend(loc='best')
for ext in FORMATS: fig.savefig(pname + ext, dpi=dpi_export, bbox_inches='tight')
if DEBUG: Image(pname +'.png')
Montage of the subplots¶
In [23]:
import tikzmagic
In [24]:
%load_ext tikzmagic
In [25]:
#DEBUG = True
if DEBUG: help(tikzmagic)
In [26]:
%%tikz -f pdf --save {fname}.pdf
\draw[white, fill=white] (0.\linewidth,0) rectangle (1.\linewidth, .382\linewidth) ;
\draw [anchor=north west] (.0\linewidth, .382\linewidth) node {\includegraphics[width=.5\linewidth]{/tmp/panel_A}};
\draw [anchor=north west] (.5\linewidth, .382\linewidth) node {\includegraphics[width=.5\linewidth]{/tmp/panel_B}};
\begin{scope}[font=\bf\sffamily\large]
\draw [anchor=west,fill=white] (.0\linewidth, .382\linewidth) node [above right=-3mm] {$\mathsf{A}$};
\draw [anchor=west,fill=white] (.53\linewidth, .382\linewidth) node [above right=-3mm] {$\mathsf{B}$};
\end{scope}
In [27]:
!convert -density {dpi_export} {fname}.pdf {fname}.jpg
!convert -density {dpi_export} {fname}.pdf {fname}.png
#!convert -density {dpi_export} -resize 5400 -units pixelsperinch -flatten -compress lzw -depth 8 {fname}.pdf {fname}.tiff
Image(fname +'.png')
Out[27]:
figure 2: Histogram Equalization Homeostasis¶
In [28]:
fname = 'figure_HEH'
First collecting data:
In [29]:
list_figures = ['show_Pcum']
dico = {}
for homeo_method in homeo_methods:
print(hl + hs + homeo_method + hs + hl)
shl = SHL(homeo_method=homeo_method, **opts)
#dico[homeo_method] = shl.learn_dico(data=data, list_figures=list_figures, matname=tag + '_' + homeo_method + '_' + str(one_cv))
dico[homeo_method] = shl.learn_dico(data=data, list_figures=list_figures, matname=tag + '_' + homeo_method + '_seed=' + str(seed+one_cv))
plt.show()
In [30]:
dico[homeo_method].P_cum.shape
Out[30]:
panel A: different P_cum¶
In [31]:
pname = '/tmp/panel_A' #pname = fname + '_A'
from shl_scripts import plot_P_cum
variable = 'F'
subplotpars = dict(left=0.2, right=.95, bottom=0.2, top=.95)#, wspace=0.05, hspace=0.05,)
fig, ax = plt.subplots(1, 1, figsize=(fig_width/2, fig_width/(1+phi)), gridspec_kw=subplotpars)
for color, homeo_method in zip(colors, homeo_methods):
ax.axis(c='b', lw=2, axisbg='w')
ax.set_facecolor('w')
fig, ax = plot_P_cum(dico[homeo_method].P_cum, ymin=0.96, ymax=1.001,
title=None, suptitle=None, ylabel='non-linear functions',
verbose=False, n_yticks=21, alpha=.02, c=color, fig=fig, ax=ax)
ax.plot([0], [0], lw=1, color=color, label=homeo_method, alpha=.6)
# ax.set_ylabel(homeo_method)
#ax.text(-8, 7*dim_graph[0], homeo_method, fontsize=12, color='k', rotation=90)#, backgroundcolor='white'
ax.legend(loc='lower right')
for ext in FORMATS: fig.savefig(pname + ext, dpi=dpi_export, bbox_inches='tight')
if DEBUG: Image(pname +'.png')
In [32]:
if DEBUG: help(fig.legend)
panel B: comparing the effects of parameters¶
In [33]:
pname = '/tmp/panel_B' #fname + '_B'
n_jobs = 1
from shl_scripts.shl_experiments import SHL_set
homeo_methods = ['None', 'OLS', 'HEH']
variables = ['eta', 'eta_homeo']
list_figures = []
for homeo_method in homeo_methods:
opts_ = opts.copy()
opts_.update(homeo_method=homeo_method)
experiments = SHL_set(opts_, tag=tag + '_' + homeo_method, base=10)
experiments.run(variables=variables, n_jobs=n_jobs, verbose=0)
import matplotlib.pyplot as plt
subplotpars = dict(left=0.2, right=.95, bottom=0.2, top=.95, wspace=0.5, hspace=0.35,)
x, y = .05, .8 #-.3
fig, axs = plt.subplots(len(variables), 1, figsize=(fig_width/2, fig_width/(1+phi)), gridspec_kw=subplotpars, sharey=True)
for i_ax, variable in enumerate(variables):
for color, homeo_method in zip(colors, homeo_methods):
opts_ = opts.copy()
opts_.update(homeo_method=homeo_method)
experiments = SHL_set(opts_, tag=tag + '_' + homeo_method, base=10)
fig, axs[i_ax] = experiments.scan(variable=variable, list_figures=[], display='final', fig=fig, ax=axs[i_ax], color=color, display_variable='F', verbose=0) #, label=homeo_metho
axs[i_ax].set_xlabel('') #variable
axs[i_ax].text(x, y, variable, transform=axs[i_ax].transAxes)
#axs[i_ax].get_xaxis().set_major_formatter(matplotlib.ticker.ScalarFormatter())
#fig.legend(loc='lower right')
for ext in FORMATS: fig.savefig(pname + ext, dpi=dpi_export, bbox_inches='tight')
if DEBUG: Image(pname +'.png')
Montage of the subplots¶
In [34]:
%%tikz -f pdf --save {fname}.pdf
\draw[white, fill=white] (0.\linewidth,0) rectangle (1.\linewidth, .382\linewidth) ;
\draw [anchor=north west] (.0\linewidth, .382\linewidth) node {\includegraphics[width=.5\linewidth]{/tmp/panel_A.pdf}};
\draw [anchor=north west] (.5\linewidth, .382\linewidth) node {\includegraphics[width=.5\linewidth]{/tmp/panel_B.pdf}};
\begin{scope}[font=\bf\sffamily\large]
\draw [anchor=west,fill=white] (.0\linewidth, .382\linewidth) node [above right=-3mm] {$\mathsf{A}$};
\draw [anchor=west,fill=white] (.53\linewidth, .382\linewidth) node [above right=-3mm] {$\mathsf{B}$};
\end{scope}
In [35]:
!convert -density {dpi_export} {fname}.pdf {fname}.jpg
!convert -density {dpi_export} {fname}.pdf {fname}.png
#!convert -density {dpi_export} -resize 5400 -units pixelsperinch -flatten -compress lzw -depth 8 {fname}.pdf {fname}.tiff
Image(fname +'.png')
Out[35]:
In [36]:
fname = 'figure_HAP'
In [37]:
colors = ['orange', 'blue', 'red', 'green']
homeo_methods = ['OLS', 'HEH', 'EMP', 'HAP']
list_figures = []
dico = {}
for i_cv in range(N_cv):
dico[i_cv] = {}
for homeo_method in homeo_methods:
shl = SHL(homeo_method=homeo_method, seed=seed+i_cv, **opts)
dico[i_cv][homeo_method] = shl.learn_dico(data=data, list_figures=list_figures, matname=tag + '_' + homeo_method + '_seed=' + str(seed+i_cv))
list_figures = ['show_dico'] if DEBUG else []
for i_cv in [one_cv]:
for homeo_method in homeo_methods:
print(hl + hs + homeo_method + hs + hl)
shl = SHL(homeo_method=homeo_method, seed=seed+i_cv, **opts)
shl.learn_dico(data=data, list_figures=list_figures, matname=tag + '_' + homeo_method + '_seed=' + str(seed+i_cv))
plt.show()
print('size of dictionary = (number of filters, size of imagelets) = ', dico[i_cv][homeo_method].dictionary.shape)
print('average of filters = ', dico[i_cv][homeo_method].dictionary.mean(axis=1).mean(),
'+/-', dico[i_cv][homeo_method].dictionary.mean(axis=1).std())
SE = np.sqrt(np.sum(dico[i_cv][homeo_method].dictionary**2, axis=1))
print('average energy of filters = ', SE.mean(), '+/-', SE.std())
panel A: plotting some dictionaries¶
In [38]:
pname = '/tmp/panel_A' #pname = fname + '_A'
In [39]:
subplotpars = dict( left=0.042, right=1., bottom=0., top=1., wspace=0.05, hspace=0.05,)
fig, axs = plt.subplots(3, 1, figsize=(fig_width/2, fig_width/(1+phi)), gridspec_kw=subplotpars)
for ax, color, homeo_method in zip(axs.ravel(), colors[1:], homeo_methods[1:]):
ax.axis(c=color, lw=2, axisbg='w')
ax.set_facecolor('w')
from shl_scripts import show_dico
fig, ax = show_dico(shl, dico[one_cv][homeo_method], data=data, dim_graph=dim_graph, fig=fig, ax=ax)
# ax.set_ylabel(homeo_method)
ax.text(-8, 7*dim_graph[0], homeo_method, fontsize=12, color=color, rotation=90)#, backgroundcolor='white'
for ext in FORMATS: fig.savefig(pname + ext, dpi=dpi_export, bbox_inches='tight')
panel B: quantitative comparison¶
In [ ]:
pname = '/tmp/panel_B' #fname + '_B'
In [ ]:
from shl_scripts import time_plot
variable = 'F'
alpha = .3
subplotpars = dict(left=0.2, right=.95, bottom=0.2, top=.95)#, wspace=0.05, hspace=0.05,)
fig, ax = plt.subplots(1, 1, figsize=(fig_width/2, fig_width/(1+phi)), gridspec_kw=subplotpars)
for i_cv in range(N_cv):
for color, homeo_method in zip(colors, homeo_methods):
ax.axis(c='b', lw=2, axisbg='w')
ax.set_facecolor('w')
if i_cv==0:
fig, ax = time_plot(shl, dico[i_cv][homeo_method], variable=variable, unit='bits', color=color, label=homeo_method, alpha=alpha_0, fig=fig, ax=ax)
else:
fig, ax = time_plot(shl, dico[i_cv][homeo_method], variable=variable, unit='bits', color=color, alpha=alpha, fig=fig, ax=ax)
ax.legend(loc='best')
for ext in FORMATS: fig.savefig(pname + ext, dpi=dpi_export, bbox_inches='tight')
if DEBUG: Image(pname +'.png')
In [ ]:
if DEBUG: Image(pname +'.png')
Montage of the subplots¶
In [ ]:
%%tikz -f pdf --save {fname}.pdf
\draw[white, fill=white] (0.\linewidth,0) rectangle (1.\linewidth, .382\linewidth) ;
\draw [anchor=north west] (.0\linewidth, .382\linewidth) node {\includegraphics[width=.5\linewidth]{/tmp/panel_A}};
\draw [anchor=north west] (.5\linewidth, .382\linewidth) node {\includegraphics[width=.5\linewidth]{/tmp/panel_B}};
\begin{scope}[font=\bf\sffamily\large]
\draw [anchor=west,fill=white] (.0\linewidth, .382\linewidth) node [above right=-3mm] {$\mathsf{A}$};
\draw [anchor=west,fill=white] (.53\linewidth, .382\linewidth) node [above right=-3mm] {$\mathsf{B}$};
\end{scope}
In [ ]:
!convert -density {dpi_export} {fname}.pdf {fname}.jpg
!convert -density {dpi_export} {fname}.pdf {fname}.png
#!convert -density {dpi_export} -resize 5400 -units pixelsperinch -flatten -compress lzw -depth 8 {fname}.pdf {fname}.tiff
Image(fname +'.png')
figure 4: Convolutional Neural Network¶
In [ ]:
fname = 'figure_CNN'
In [ ]:
!rm -fr /tmp/database/Face_DataBase
!mkdir -p /tmp/database && rsync -a "/Users/laurentperrinet/science/VB_These/Rapport d'avancement/database/Face_DataBase" /tmp/database/
#!mkdir -p /tmp/database/ && rsync -a "/Users/laurentperrinet/science/VB_These/Rapport d'avancement/database/Face_DataBase/Raw_DataBase/*" /tmp/database/Face_DataBase
In [ ]:
from CHAMP.DataLoader import LoadData
from CHAMP.DataTools import LocalContrastNormalization, FilterInputData, GenerateMask
from CHAMP.Monitor import DisplayDico, DisplayConvergenceCHAMP, DisplayWhere
import os
datapath = os.path.join("/tmp", "database")
path = os.path.join(datapath, "Face_DataBase")
TrSet, TeSet = LoadData('Face', path, decorrelate=False, resize=(65, 65))
# MP Parameters
nb_dico = 20
width = 9
dico_size = (width, width)
l0 = 20
seed = 42
# Learning Parameters
eta = .05
nb_epoch = 500
TrSet, TeSet = LoadData('Face', path, decorrelate=False, resize=(65, 65))
N_TrSet, _, _, _ = LocalContrastNormalization(TrSet)
Filtered_L_TrSet = FilterInputData(
N_TrSet, sigma=0.25, style='Custom', start_R=15)
mask = GenerateMask(full_size=(nb_dico, 1, width, width), sigma=0.8, style='Gaussian')
from CHAMP.CHAMP_Layer import CHAMP_Layer
from CHAMP.DataTools import SaveNetwork, LoadNetwork
homeo_methods = ['None', 'HAP']
for homeo_method, eta_homeo in zip(homeo_methods, [0., 0.0025]):
ffname = 'cache_dir_CNN/CHAMP_low_' + homeo_method + '.pkl'
try:
L1_mask = LoadNetwork(loading_path=ffname)
except:
L1_mask = CHAMP_Layer(l0_sparseness=l0, nb_dico=nb_dico,
dico_size=dico_size, mask=mask, verbose=1)
dico_mask = L1_mask.TrainLayer(
Filtered_L_TrSet, eta=eta, eta_homeo=eta_homeo, nb_epoch=nb_epoch, seed=seed)
SaveNetwork(Network=L1_mask, saving_path=ffname)
panel A: plotting some dictionaries¶
In [ ]:
pname = '/tmp/panel_A' #pname = fname + '_A'
In [ ]:
subplotpars = dict(left=0.042, right=1., bottom=0., top=1., wspace=0.05, hspace=0.05,)
for color, homeo_method in zip(['black', 'green'], homeo_methods):
#fig, axs = plt.subplots(1, 1, figsize=(fig_width/2, fig_width/(1+phi)), gridspec_kw=subplotpars)
ffname = 'cache_dir_CNN/CHAMP_low_' + homeo_method + '.pkl'
L1_mask = LoadNetwork(loading_path=ffname)
fig, ax = DisplayDico(L1_mask.dictionary)
# ax.set_ylabel(homeo_method)
#for ax in list(axs):
# ax.axis(c=color, lw=2, axisbg='w')
# ax.set_facecolor('w')
ax[0].text(-4, 3, homeo_method, fontsize=8, color=color, rotation=90)#, backgroundcolor='white'
plt.tight_layout( pad=0., w_pad=0., h_pad=.0)
for ext in FORMATS: fig.savefig(pname + '_' + homeo_method + ext, dpi=dpi_export, bbox_inches='tight')
panel B: quantitative comparison¶
In [ ]:
pname = '/tmp/panel_B' #fname + '_B'
In [ ]:
from shl_scripts import time_plot
variable = 'F'
alpha = .3
subplotpars = dict(left=0.2, right=.95, bottom=0.2, top=.95)#, wspace=0.05, hspace=0.05,)
for color, homeo_method in zip(['black', 'green'], homeo_methods):
#fig, axs = plt.subplots(1, 1, figsize=(fig_width/2, fig_width/(1+phi)), gridspec_kw=subplotpars)
ffname = 'cache_dir_CNN/CHAMP_low_' + homeo_method + '.pkl'
L1_mask = LoadNetwork(loading_path=ffname)
fig, ax = DisplayConvergenceCHAMP(L1_mask, to_display=['histo'], color=color)
ax.axis(c=color, lw=2, axisbg='w')
ax.set_facecolor('w')
ax.set_ylabel('counts')
ax.set_xlabel('feature #')
ax.set_ylim(0, 560)
#ax.text(-8, 7*dim_graph[0], homeo_method, fontsize=12, color=color, rotation=90)#, backgroundcolor='white'
#ax[0].text(-8, 3, homeo_method, fontsize=12, color=color, rotation=90)#, backgroundcolor='white'
for ext in FORMATS: fig.savefig(pname + '_' + homeo_method + ext, dpi=dpi_export, bbox_inches='tight')
if DEBUG: Image(pname +'.png')
Montage of the subplots¶
In [ ]:
%ls -ltr /tmp/panel_*
In [ ]:
%%tikz -f pdf --save {fname}.pdf
\draw[white, fill=white] (0.\linewidth,0) rectangle (1.\linewidth, .382\linewidth) ;
\draw [anchor=north west] (.0\linewidth, .375\linewidth) node {\includegraphics[width=.95\linewidth]{/tmp/panel_A_None}};
\draw [anchor=north west] (.0\linewidth, .300\linewidth) node {\includegraphics[width=.95\linewidth]{/tmp/panel_A_HAP}};
\draw [anchor=north west] (.0\linewidth, .191\linewidth) node {\includegraphics[width=.45\linewidth]{/tmp/panel_B_None}};
\draw [anchor=north west] (.5\linewidth, .191\linewidth) node {\includegraphics[width=.45\linewidth]{/tmp/panel_B_HAP}};
\begin{scope}[font=\bf\sffamily\large]
%\draw [anchor=west,fill=white] (.0\linewidth, .382\linewidth) node [above right=-3mm] {$\mathsf{A}$};
\draw [anchor=west,fill=white] (.0\linewidth, .191\linewidth) node [above right=-3mm] {$\mathsf{A}$};
\draw [anchor=west,fill=white] (.53\linewidth, .191\linewidth) node [above right=-3mm] {$\mathsf{B}$};
\end{scope}
In [ ]:
!convert -density {dpi_export} {fname}.pdf {fname}.jpg
!convert -density {dpi_export} {fname}.pdf {fname}.png
#!convert -density {dpi_export} -resize 5400 -units pixelsperinch -flatten -compress lzw -depth 8 {fname}.pdf {fname}.tiff
Image(fname +'.png')
coding¶
The learning itself is done via a gradient descent but is highly dependent on the coding / decoding algorithm. This belongs to a another function (in the shl_encode.py script)
Supplementary controls¶
starting a learning¶
In [ ]:
shl = SHL(**opts)
list_figures = ['show_dico', 'show_Pcum', 'time_plot_F']
dico = shl.learn_dico(data=data, list_figures=list_figures, matname=tag + '_vanilla')
In [ ]:
print('size of dictionary = (number of filters, size of imagelets) = ', dico.dictionary.shape)
print('average of filters = ', dico.dictionary.mean(axis=1).mean(),
'+/-', dico.dictionary.mean(axis=1).std())
SE = np.sqrt(np.sum(dico.dictionary**2, axis=1))
print('average energy of filters = ', SE.mean(), '+/-', SE.std())
getting help¶
In [ ]:
help(shl)
In [ ]:
help(dico)
loading a database¶
Loading patches, with or without mask:
In [ ]:
N_patches = 12
from shl_scripts.shl_tools import show_data
opts_ = opts.copy()
opts_.update(verbose=0)
for i, (do_mask, label) in enumerate(zip([False, True], ['Without mask', 'With mask'])):
data_ = SHL(DEBUG_DOWNSCALE=1, N_patches=N_patches, n_image=1, do_mask=do_mask, seed=seed, **opts_).get_data()
fig, axs = show_data(data_)
axs[0].set_ylabel(label);
plt.show()
Testing different algorithms¶
In [ ]:
fig, ax = None, None
for homeo_method in ['None', 'HAP']:
for algorithm in ['lasso_lars', 'lars', 'elastic', 'omp', 'mp']: # 'threshold', 'lasso_cd',
opts_ = opts.copy()
opts_.update(homeo_method=homeo_method, learning_algorithm=algorithm, verbose=0)
shl = SHL(**opts_)
dico= shl.learn_dico(data=data, list_figures=[],
matname=tag + ' - algorithm={}'.format(algorithm) + ' - homeo_method={}'.format(homeo_method))
fig, ax = shl.time_plot(dico, variable='F', fig=fig, ax=ax, label=algorithm +'_' + homeo_method)
ax.legend()
Testing two different dictionary initalization strategies¶
White Noise Initialization + Learning
In [ ]:
shl = SHL(one_over_F=False, **opts)
dico_w = shl.learn_dico(data=data, matname=tag + '_WHITE', list_figures=[])
shl = SHL(one_over_F=True, **opts)
dico_1oF = shl.learn_dico(data=data, matname=tag + '_OVF', list_figures=[])
fig_error, ax_error = None, None
fig_error, ax_error = shl.time_plot(dico_w, variable='F', fig=fig_error, ax=ax_error, color='blue', label='white noise')
fig_error, ax_error = shl.time_plot(dico_1oF, variable='F', fig=fig_error, ax=ax_error, color='red', label='one over f')
#ax_error.set_ylim((0, .65))
ax_error.legend(loc='best')
Testing two different learning rates strategies¶
We use by defaut the strategy of ADAM, see https://arxiv.org/pdf/1412.6980.pdf
In [ ]:
shl = SHL(beta1=0., **opts)
dico_fixed = shl.learn_dico(data=data, matname=tag + '_fixed', list_figures=[])
shl = SHL(**opts)
dico_default = shl.learn_dico(data=data, matname=tag + '_default', list_figures=[])
fig_error, ax_error = None, None
fig_error, ax_error = shl.time_plot(dico_fixed, variable='F', fig=fig_error, ax=ax_error, color='blue', label='fixed')
fig_error, ax_error = shl.time_plot(dico_default, variable='F', fig=fig_error, ax=ax_error, color='red', label='ADAM')
#ax_error.set_ylim((0, .65))
ax_error.legend(loc='best')
Testing different number of neurons and sparsity¶
As suggested by AnonReviewer3, we have tested how the convergence was modified by changing the number of neurons. By comparing different numbers of neurons we could re-draw the same figures for the convergence of the algorithm as in our original figures. In addition, we have also checked that this result will hold on a range of sparsity levels. In particular, we found that in general, increasing the l0_sparseness parameter, the convergence took progressively longer. Importantly, we could see that in both cases, this did not depend on the kind of homeostasis heuristic chosen, proving the generality of our results.
This is shown in the supplementary material that we have added to our revision ("Testing different number of neurons and sparsity") . This useful extension proves the originality of our work as highlighted in point 4, and the generality of these results compared to the parameters of the network.
In [ ]:
from shl_scripts.shl_experiments import SHL_set
homeo_methods = ['None', 'OLS', 'HEH']
homeo_methods = ['None', 'EMP', 'HAP', 'HEH', 'OLS']
variables = ['l0_sparseness', 'n_dictionary']
list_figures = []
#n_dictionary=21**2
for homeo_method in homeo_methods:
opts_ = opts.copy()
opts_.update(homeo_method=homeo_method, datapath=datapath)
experiments = SHL_set(opts_, tag=tag + '_' + homeo_method)
experiments.run(variables=variables, n_jobs=1, verbose=0)
fig, axs = plt.subplots(len(variables), 1, figsize=(fig_width/2, fig_width/(1+phi)), gridspec_kw=subplotpars, sharey=True)
for i_ax, variable in enumerate(variables):
for color, homeo_method in zip(colors, homeo_methods):
opts_ = opts.copy()
opts_.update(homeo_method=homeo_method, datapath=datapath)
experiments = SHL_set(opts_, tag=tag + '_' + homeo_method)
fig, axs[i_ax] = experiments.scan(variable=variable, list_figures=[], display='final', fig=fig, ax=axs[i_ax], color=color, display_variable='F', verbose=0) #, label=homeo_metho
axs[i_ax].set_xlabel('') #variable
axs[i_ax].text(.1, .8, variable, transform=axs[i_ax].transAxes)
#axs[i_ax].get_xaxis().set_major_formatter(matplotlib.ticker.ScalarFormatter())
Perspectives¶
Convolutional neural networks¶
In [ ]:
from CHAMP.DataLoader import LoadData
from CHAMP.DataTools import LocalContrastNormalization, FilterInputData, GenerateMask
from CHAMP.Monitor import DisplayDico, DisplayConvergenceCHAMP, DisplayWhere
import os
home = os.getenv('HOME')
datapath = os.path.join("/tmp", "database")
path = os.path.join(datapath, "Raw_DataBase")
TrSet, TeSet = LoadData('Face', path, decorrelate=False, resize=(65, 65))
to_display = TrSet[0][0, 0:10, :, :, :]
print('Size=', TrSet[0].shape)
DisplayDico(to_display)
Training on a face database¶
In [ ]:
# MP Parameters
nb_dico = 20
width = 9
dico_size = (width, width)
l0 = 20
seed = 42
# Learning Parameters
eta = .05
nb_epoch = 500
TrSet, TeSet = LoadData('Face', path, decorrelate=False, resize=(65, 65))
N_TrSet, _, _, _ = LocalContrastNormalization(TrSet)
Filtered_L_TrSet = FilterInputData(
N_TrSet, sigma=0.25, style='Custom', start_R=15)
to_display = Filtered_L_TrSet[0][0, 0:10, :, :, :]
DisplayDico(to_display)
mask = GenerateMask(full_size=(nb_dico, 1, width, width), sigma=0.8, style='Gaussian')
DisplayDico(mask)
Training the ConvMP Layer with homeostasis¶
In [ ]:
from CHAMP.CHAMP_Layer import CHAMP_Layer
from CHAMP.DataTools import SaveNetwork, LoadNetwork
fname = 'cache_dir_CNN/CHAMP_low_None.pkl'
try:
L1_mask = LoadNetwork(loading_path=fname)
except:
L1_mask = CHAMP_Layer(l0_sparseness=l0, nb_dico=nb_dico,
dico_size=dico_size, mask=mask, verbose=2)
dico_mask = L1_mask.TrainLayer(
Filtered_L_TrSet, eta=eta, nb_epoch=nb_epoch, seed=seed)
SaveNetwork(Network=L1_mask, saving_path=fname)
DisplayDico(L1_mask.dictionary)
DisplayConvergenceCHAMP(L1_mask, to_display=['error', 'histo'])
DisplayWhere(L1_mask.where)
Training the ConvMP Layer with homeostasis¶
In [ ]:
fname = 'cache_dir_CNN/CHAMP_low_HAP.pkl'
try:
L1_mask = LoadNetwork(loading_path=fname)
except:
# Learning Parameters
eta_homeo = 0.0025
L1_mask = CHAMP_Layer(l0_sparseness=l0, nb_dico=nb_dico,
dico_size=dico_size, mask=mask, verbose=1)
dico_mask = L1_mask.TrainLayer(
Filtered_L_TrSet, eta=eta, eta_homeo=eta_homeo, nb_epoch=nb_epoch, seed=seed)
SaveNetwork(Network=L1_mask, saving_path=fname)
DisplayDico(L1_mask.dictionary)
DisplayConvergenceCHAMP(L1_mask, to_display=['error'])
DisplayConvergenceCHAMP(L1_mask, to_display=['histo'])
DisplayWhere(L1_mask.where)
Reconstructing the input image¶
In [ ]:
from CHAMP.DataTools import Rebuilt
import torch
rebuilt_image = Rebuilt(torch.FloatTensor(L1_mask.code), L1_mask.dictionary)
DisplayDico(rebuilt_image[0:10, :, :, :]);
Training the ConvMP Layer with higher-level filters¶
We train higher-level feature vectors by forcing the network to :
- learn bigger filters,
- represent the information using a bigger dictionary (higher sparseness)
- represent the information with less features (higher sparseness)
In [ ]:
fname = 'cache_dir_CNN/CHAMP_high_None.pkl'
try:
L1_mask = LoadNetwork(loading_path=fname)
except:
nb_dico = 60
width = 19
dico_size = (width, width)
l0 = 5
mask = GenerateMask(full_size=(nb_dico, 1, width, width), sigma=0.8, style='Gaussian')
# Learning Parameters
eta_homeo = 0.0
eta = .05
nb_epoch = 500
# learn
L1_mask = CHAMP_Layer(l0_sparseness=l0, nb_dico=nb_dico,
dico_size=dico_size, mask=mask, verbose=0)
dico_mask = L1_mask.TrainLayer(
Filtered_L_TrSet, eta=eta, eta_homeo=eta_homeo, nb_epoch=nb_epoch, seed=seed)
SaveNetwork(Network=L1_mask, saving_path=fname)
DisplayDico(L1_mask.dictionary)
DisplayConvergenceCHAMP(L1_mask, to_display=['error'])
DisplayConvergenceCHAMP(L1_mask, to_display=['histo'])
DisplayWhere(L1_mask.where);
In [ ]:
fname = 'cache_dir_CNN/CHAMP_high_HAP.pkl'
try:
L1_mask = LoadNetwork(loading_path=fname)
except:
nb_dico = 60
width = 19
dico_size = (width, width)
l0 = 5
mask = GenerateMask(full_size=(nb_dico, 1, width, width), sigma=0.8, style='Gaussian')
# Learning Parameters
eta_homeo = 0.0025
eta = .05
nb_epoch = 500
# learn
L1_mask = CHAMP_Layer(l0_sparseness=l0, nb_dico=nb_dico,
dico_size=dico_size, mask=mask, verbose=0)
dico_mask = L1_mask.TrainLayer(
Filtered_L_TrSet, eta=eta, eta_homeo=eta_homeo, nb_epoch=nb_epoch, seed=seed)
SaveNetwork(Network=L1_mask, saving_path=fname)
DisplayDico(L1_mask.dictionary)
DisplayConvergenceCHAMP(L1_mask, to_display=['error'])
DisplayConvergenceCHAMP(L1_mask, to_display=['histo'])
DisplayWhere(L1_mask.where);
Training on MNIST database¶
Computational details¶
caching simulation data¶
In [ ]:
!ls -l {shl.cache_dir}/{tag}*
#!rm {shl.cache_dir}/{tag}*lock*
#!rm {shl.cache_dir}/{tag}*
#!ls -l {shl.cache_dir}/{tag}*
In [ ]:
%run model.py {tag} 0
Version used¶
In [40]:
%load_ext watermark
%watermark -i -h -m -v -p numpy,matplotlib,shl_scripts
exporting the notebook¶
In [47]:
!jupyter nbconvert --to html_embed Annex.ipynb --output=index.html
In [42]:
#!jupyter-nbconvert --template report --to pdf Annex.ipynb
In [43]:
#!pandoc Annex.html -o Annex.pdf
In [44]:
#!/Applications/Chromium.app/Contents/MacOS/Chromium --headless --disable-gpu --print-to-pdf=Annex.pdf file:///tmp/Annex.html
In [45]:
#!zip Annex.zip Annex.html
version control¶
In [46]:
!git status
In [ ]:
!git pull
In [ ]:
!git commit -am' {tag} : re-running notebooks'
In [ ]:
!git push
Done. Thanks for your attention!